Genetic structure of a <i>Pyrenophora teres</i> f. <i>teres</i> population over time in an Australian barley field as revealed by Diversity Arrays Technology markers

Poudel, Barsha; Vaghefi, Niloofar; McLean, Mark S.; Platz, G. J.; Sutherland, Mark W.; Martín, Azahara C.

doi:10.1111/ppa.13035

Cited by 7 publications

(10 citation statements)

References 39 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…These genetic variations were driven by sexual reproduction, gene flow and transposable element invasion. More recently, Ptt population genetic studies using Diversity Arrays Technology (DArT) found rapid changes in population genetic structure under field conditions (Poudel et al, 2019b).…”

Section: Introductionmentioning

confidence: 99%

Species hybridisation and clonal expansion as a new fungicide resistance evolutionary mechanism in Pyrenophora teres spp

Turo

Mair

Martín

et al. 2021

Preprint

View full text Add to dashboard Cite

The barley net blotch diseases are caused by two fungal species of the Pyrenophora genus. Specifically, spot form net blotch is caused by P. teres f. sp. maculata (Ptm) whereas net form net blotch is caused by P. teres f. sp. teres (Ptt). Ptt and Ptm show high genetic diversity in the field due to intraspecific sexual recombination and hybridisation of the two species although the latter is considered rare. Here we present occurrence of a natural Ptt/Ptm hybrid with azole fungicides resistance and its implication to barley disease management in Australia. We collected and sequenced a hybrid, 3 Ptm and 10 Ptt isolates and performed recombination analyses in the intergenic and whole genome level. Eleven out of 12 chromosomes showed significant (P < 0.05) recombination events in the intergenic regions while variable recombination rate showed significant recombination across all the chromosomes. Locus specific analyses of Cyp51A1 gene showed at least four recombination breakpoints including a point mutation that alter target protein function. This point mutation did not found in Ptt and Ptm collected prior to 2013 and 2017, respectively. Further genotyping of fourteen Ptt, 48 HR Ptm, fifteen Ptm and two P. teres isolates from barley grass using Diversity Arrays Technology markers showed that all HR Ptm isolates were clonal and not clustered with Ptt or Ptm. The result confirms occurrence of natural recombination between Ptt and Ptm in Western Australia and the HR Ptm is likely acquired azole fungicide resistance through recombination and underwent recent rapid selective sweep likely within the last decade. The use of available fungicide resistance management tactics are essential to minimise and restrict further dissemination of these adaptive HR Ptm isolates.

show abstract

Section: Introductionmentioning

confidence: 99%

Species hybridisation and clonal expansion as a new fungicide resistance evolutionary mechanism in Pyrenophora teres spp

Turo

Mair

Martín

et al. 2021

Preprint

View full text Add to dashboard Cite

show abstract

“…The advanced DArT technology also identifies single nucleotide polymorphisms (SNPs) within sequences. This technology has been previously implemented for genetic population analysis of fungal species including P. teres (Martin et al 2020;Poudel et al 2019;Syme et al 2018).…”

mentioning

confidence: 99%

Population Structure of Pyrenophora teres f. teres Barley Pathogens from Different Continents

et al. 2021

Self Cite

View full text Add to dashboard Cite

Net-form net blotch disease caused by Pyrenophora teres f. teres (Ptt) results in significant yield losses to barley industries. Up-to-date knowledge of the genetic diversity and structure of pathogen populations is critical for better understanding the disease epidemiology and unravelling pathogen survival and dispersal mechanisms. Thus, this study investigated long distance dispersal and adaptation by analysing the genetic structure of 250 Ptt isolates collected from Australia, Canada, Hungary and Republic of South Africa (RSA), and historical isolates from Canada, Denmark, Japan and Sweden. The population genetic structure detected by discriminant analysis of principal component, using 5890 Diversity Arrays Technology (DArT) markers, revealed the presence of four clusters. Two of these contained isolates from all regions, and all isolates from RSA were grouped in these two. Australia and Hungary showed three clusters each. One of the Australian clusters contained only Australian isolates. One of the Hungarian clusters contained only Hungarian isolates and one Danish isolate. STRUCTURE analysis indicated that some isolates from Australia and Hungary shared recent ancestry with RSA, Canada and historical isolates and were thus admixed. Subdivisions of the Neighbor-joining network indicated that isolates from distinct countries were closely related, suggesting multiple introduction events conferred genetic heterogeneity in these countries. Through a Neighbor-joining analysis and amplification with form-specific DNA markers two hybrid isolates, CBS 281.31 from Japan and H-919 from Hungary collected in 1931 and 2018, respectively, were detected. These results provide a foundation for exploring improved management of disease incursions and pathogen control through strategic deployment of resistances.

show abstract

“…Association mapping requires high-throughput genotyping and sequencing methods to provide large numbers of markers. One such method, Diversity Arrays Technology sequence (DArTseq), has been developed for a number of fungal pathogens, including P. teres (Poudel et al 2019b;Sharma et al 2014;Syme et al 2018;Wittenberg et al 2009). DArTseq involves a combination of genomic complexity reduction methods and next generation sequencing, where the markers detect single-nucleotide polymorphisms (SNPs) and the presence/absence of fragments (Courtois et al 2013;Cruz et al 2013;Kilian et al 2012;Raman et al 2014).…”

mentioning

confidence: 99%

Genomic Regions Associated with Virulence in Pyrenophora teres f. teres Identified by Genome-Wide Association Analysis and Biparental Mapping

Martin

Moolhuijzen

Tao³

et al. 2020

Phytopathology®

Self Cite

View full text Add to dashboard Cite

Net form net blotch (NFNB), caused by the fungal pathogen Pyrenophora teres f. teres, is an important foliar disease present in all barley-producing regions of the world. This fungus is a hemibiotrophic and heterothallic ascomycete, where sexual recombination can lead to changes in disease expression in the host. Knowledge of the genetic architecture and genes involved in virulence is vital to increase the durability of NFNB resistance in barley cultivars. We used a genome-wide association mapping approach to characterize P. teres f. teres genomic regions associated with virulence in Australian barley cultivars. One hundred eighty-eight P. teres f. teres isolates collected across five Australian states were genotyped using Diversity Arrays Technology sequence markers and phenotyped across 20 different barley genotypes. Association mapping identified 14 different genomic regions associated with virulence, with the majority located on P. teres f. teres chromosomes 3 and 5 and one each present on chromosomes 1, 6, and 9. Four of the regions identified were confirmed by quantitative trait loci (QTL) mapping. The QTL regions are discussed in the context of their genomic architecture together with examination of their gene contents, which identified 20 predicted effectors. The number of QTL shown in this study at the population level clearly illustrates a complex genetic basis of P. teres f. teres virulence compared with pure necrotrophs, such as the wheat pathogens Parastagonospora nodorum and Parastagonospora tritici-repentis.

show abstract

Genetic structure of a Pyrenophora teres f. teres population over time in an Australian barley field as revealed by Diversity Arrays Technology markers

Cited by 7 publications

References 39 publications

Species hybridisation and clonal expansion as a new fungicide resistance evolutionary mechanism in Pyrenophora teres spp

Species hybridisation and clonal expansion as a new fungicide resistance evolutionary mechanism in Pyrenophora teres spp

Population Structure of Pyrenophora teres f. teres Barley Pathogens from Different Continents

Genomic Regions Associated with Virulence in Pyrenophora teres f. teres Identified by Genome-Wide Association Analysis and Biparental Mapping

Contact Info

Product

Resources

About